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Feature/gfsv16b wave #2
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JessicaMeixner-NOAA
merged 2 commits into
JessicaMeixner-NOAA:feature/gfsv16b-wave
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KateFriedman-NOAA:feature/gfsv16b-wave
Aug 25, 2020
Merged
Feature/gfsv16b wave #2
JessicaMeixner-NOAA
merged 2 commits into
JessicaMeixner-NOAA:feature/gfsv16b-wave
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KateFriedman-NOAA:feature/gfsv16b-wave
Aug 25, 2020
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JessicaMeixner-NOAA
merged commit Aug 25, 2020
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JessicaMeixner-NOAA:feature/gfsv16b-wave
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Sep 9, 2020
* Pointing to v3.1 tag for ufs-s2s-model making readme consistant with user.yaml.default * bug fix, POSTGRB2TBL undefined * Squashing commits to wave2global * Fix to JWAVE_PREP to look back a day for rtofs * Moving standalone fv3 model_config exglobal_fcst block into if/else/fi cplwav model_config block. Reinstating config.wave block in JGLOBAL_FORECAST. Pointing EXECwave to HOMEgfs/exec directory for WW3 util executables (changed link_fv3gfs.sh accordingly). Removing debug options from compile.sh line in build_fv3.sh. * Clean up exwave_post_sbs * clean up unused schema move default value into defaults/ * move all default values into /defaults from /schema It's better if we have one place to manage default values for configurable variables other than two Default values only for reference. Please throughly test to make sure it could reproduce. * model_configure_DATM * merge in the latest revision from IPD work * add stoch variables to config.fcst scripts update: CCPP and IPD works * capital case CDUMP values in config.fv3 * stochy variable namelist update, add hard-coded variables into config.fcst (fcst.yaml) * OCNTIM and ICETIM are included in config.fv3 ice variable istep0 bug fix * stochastic variables update * delete falseful copy after namelist and model_configure parsing add FNMSKH conditional clause, coupled vs non-coupled * update on sandbox platform, for FIX_SCRUB settings * turn off stochastic features in case file * configuration update for CCPP scripts * generalize fix file directory for imp_physics 8 * reiflag default value changed to 1 * port to Orion * remove HERA-like paths in platform.yaml of Orion * checkout and External.cfg update * update checkout and External.cfg * case file adjustment for Orion IC * expand gitignore * automate fix file linking, to this location: /work/noaa/marine/jmeixner/tempFixICdir/fix/fix_prep_benchmark3 * updates to checkout, build and link to run prototype 4 * update UPP version to v1.0.8 * making Externals_coupled.cfg consistent with checkout.sh * removing fix from .gitignore * fixed error when linking on hera * replace MOM6IC with BASE_CPLIC for base directory location of IC for s2s model and made it platform dependent. (Orion location is temporary and needs to be replaced, can also be changed in cases/coupled_free_forecast.yaml to users prefered location) * updates for copying ICs * more updates for ICs * updates for new fix (which includes prep for multiple resolutions) and some clean-up * renaming exe to reflect updated build * update diag_table for ocean * updates for ice_in to match prototype 4 * updates for CCPP suite used in p4 * making a fix dir of all available ccpp suite files copying suite xml file to rundirectory * updating for reorganized tar files, pulling in changes from wcoss-p2 workflow * last of archive updates for p4 * updating module files to match s2s model and ncep post modules * we don't want to cycle/have 4 runs per day so setting the cases to be just 1 IC * updating module files on hera * updates to readme for orion * mediator cold start succeeds on hera and forecast job starts post jobs for atmosphere are no longer triggered on cold starts * adding ncks, updating ocean post, some fixes for tar files * updates for tar files and do not keep data * fix typo * updating module_base.orion that allows cold start to run. Not sure if other jobs will now fail though or if what is in your .bashrc file will effect the success/failure of the run. * both forecast and atm post seem to be running okay on orion * wave configuration files * wave configuration update * fix module-setup.sh.inc script, which causes module purge unsuccessful * 1, Moved some of the variables into configuration system from JWAVE scripts 2, Wave configuration system built out 3, Modularized scripts updated to accomodate wave variables * Fix suite name of CCPP Move cplwav and cplwav2atm variable * Revise CCPP_SUITE variable name, default option, to "IPD" * wave post-process job update * reg2grb2 for test on feature coupled-crow * orion hera build test * reg2grb2 Build on Hera and Orion * Merged and ready for test * add ocn-ice build to readme * adding updates to wave scripts from gfsv16b branch by @ajhenrique * cleaning up double cplwav * changes to wave case * bugfix in layout file * bug fix in layout file * move OCNPETS, ICEPETS and WAVEPETS into dedicated model-specific sessions instead of fv3_gfs_settings * first try for adding wave ICs * fix bugs in config.wave and coupled_ic.sh * updates for wave defaults for s2s p4 * updates for running wave jobs * point WW3-related executables through HOMEgfs/fv3_coupled.fd/exec * ocean post hours at boundary are processed twice, now fixed. * wave init job now works on hera * adding missing file from last commit * add ocean, ice and wave configurable variables * add ocean, ice and wave configurable variables * put ic type variable into config.fv3ic * wave init now works on orion * updates to run wave prep for s2s case * updating forecast job for wave jobs * updates for forecast with waves * at this point the ocean post is now running * fix nems.configure for cold start * updated wave-realted scripts to match gfsv16 branch updated environment files env/ORION.env updated configuration system * S2s prototype4 (#2) * add waves to jglobal forecast config * updates - everything but wave post seems to run now, part of wave post does updating model to latest tag * change for lmod -> lmod/lmod on orion updated README * fixing syntax error in JWAVE_PREP job for variables that are not actively being used * adding cycle definition to wave post job * cleanup from duplications Co-authored-by: Jessica.Meixner <Jessica.Meixner@noaa.gov> Co-authored-by: Henrique Alves <henrique.alves@noaa.gov> Co-authored-by: kate.friedman <kate.friedman@noaa.gov> Co-authored-by: Jose-Henrique Alves <47567389+ajhenrique@users.noreply.github.com> Co-authored-by: Lin.Gan <lin.gan@noaa.gov>
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Squashed commit of the following: commit 0e0dc87 Merge: b133700 95a6343 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Thu Mar 26 10:54:44 2020 -0400 Merge pull request NOAA-EMC#42 from NOAA-EMC/hotfix/viewer Issue NOAA-EMC#41 - Update PRODUTIL paths for WCOSS in viewer commit 95a6343 Author: kate.friedman <kate.friedman@noaa.gov> Date: Thu Mar 26 14:43:44 2020 +0000 Issue NOAA-EMC#41 - Update PRODUTIL paths for WCOSS in viewer commit b133700 Author: kate.friedman <kate.friedman@noaa.gov> Date: Thu Mar 26 13:01:38 2020 +0000 Issue NOAA-EMC#21 - correct syntax for machine if-blocks in setup_expt scripts commit f4ee509 Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Mar 25 20:52:49 2020 +0000 Issue NOAA-EMC#21 - remove unneeded logic from partition check commit 4acc80f Merge: accb6f4 fb1c79f Author: Hang-Lei-NOAA <44901908+Hang-Lei-NOAA@users.noreply.github.com> Date: Wed Mar 25 15:22:51 2020 -0400 Merge pull request NOAA-EMC#40 from NOAA-EMC/port2wcoss3p5 Issue NOAA-EMC#21 - Add support for WCOSS phase 3.5 commit fb1c79f Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Mar 25 16:06:54 2020 +0000 Issue NOAA-EMC#21 - updated WCOSS phase 3.5 queues commit 08a5354 Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Mar 25 14:58:14 2020 +0000 Issue NOAA-EMC#21 - add phase 3.5 support - add partition option to setup scripts - remove machine if-blocks from config.base and add variable population to setup_expt*py scripts - add phase 3.5 ppn value to WCOSS_DELL_P3 env and config.resources files commit accb6f4 Merge: 057b2a8 8b51b56 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Mon Mar 23 14:01:30 2020 -0400 Merge pull request NOAA-EMC#39 from NOAA-EMC/feature/verif-tag Issue NOAA-EMC#38 - update EMC_verif-global pointer from VLab to GitHub commit 8b51b56 Author: kate.friedman <kate.friedman@noaa.gov> Date: Mon Mar 23 17:40:18 2020 +0000 Issue NOAA-EMC#38 - update EMC_verif-global pointer from VLab to GitHub commit 057b2a8 Merge: 0377d20 622167d Author: Kate Friedman <kate.friedman@noaa.gov> Date: Wed Mar 11 12:00:58 2020 -0400 Merge pull request NOAA-EMC#29 from NOAA-EMC/feature/manage_externals Issue #3 - Introduce manage_externals as replacement for checkout.sh commit 622167d Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Mar 6 18:20:31 2020 +0000 Issue #3 - added explicit config flag example for checkout_externals in README and blurb about this replacing checkout.sh commit e83b90d Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Mar 6 17:00:15 2020 +0000 Issue #3 - remove prod_util and grib_util sections from build_all.sh, removed elsewhere already commit 8699b46 Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Mar 6 16:30:54 2020 +0000 Issue #3 - updated README with new manic version commit e602cd3 Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Mar 6 16:27:57 2020 +0000 Issue #3 - updated link_fv3gfs.sh to adjust wafs links commit 830c73f Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Mar 6 15:21:45 2020 +0000 Issue #3 - update EMC_verif-global tag in Externals.cfg after sync with develop commit 40084e6 Merge: f662fff 0377d20 Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Mar 6 15:18:52 2020 +0000 Issue #3 - Merge branch 'develop' into feature/manage_externals commit 0377d20 Merge: 1b359db 2552467 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Thu Mar 5 08:43:16 2020 -0500 Merge pull request NOAA-EMC#28 from NOAA-EMC/feature/metplus2 Issue #8 - add switch for MET+ jobs commit 2552467 Author: kate.friedman <kate.friedman@noaa.gov> Date: Thu Mar 5 13:31:02 2020 +0000 Issue #8 - add switch for MET+ jobs commit 1b359db Merge: 0359d34 31bb7d3 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Wed Mar 4 10:19:36 2020 -0500 Merge pull request NOAA-EMC#26 from NOAA-EMC/feature/metplus Feature/metplus - refactored MET+ jobs to resolve timing issues commit 31bb7d3 Merge: eb73e52 0359d34 Author: Mallory Row <mallory.row@noaa.gov> Date: Wed Feb 19 15:24:42 2020 +0000 Merge branch 'develop' into feature/metplus commit f662fff Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Feb 14 15:57:05 2020 +0000 Issue #3 - Updated README with new manic tag v1.1.7 commit e3196a8 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Thu Feb 13 15:59:06 2020 -0500 Update README.md commit e46b175 Merge: 4bd0e20 0359d34 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Feb 13 20:38:04 2020 +0000 Issue #3 - sync merge with develop branch commit 0359d34 Merge: 1d9a1f0 bd00cb9 Author: Hang-Lei-NOAA <44901908+Hang-Lei-NOAA@users.noreply.github.com> Date: Thu Feb 13 09:53:59 2020 -0500 Merge pull request NOAA-EMC#19 from NOAA-EMC/feature/remove_theia Feature/remove theia commit eb73e52 Author: Mallory Row <mallory.row@noaa.gov> Date: Fri Feb 7 14:04:37 2020 +0000 Update EMC_verif-global checkout to verif_global_v1.5.0 commit bd00cb9 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Fri Feb 7 13:41:05 2020 +0000 Issue #4 - bug fix in getic.sh for v15 commit 1c85197 Merge: 67dae40 1d9a1f0 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Fri Feb 7 13:27:18 2020 +0000 Issue # 4 - Sync merge branch 'develop' into feature/remove_theia commit 1d9a1f0 Merge: 3ed9267 bdbecaa Author: Kate Friedman <kate.friedman@noaa.gov> Date: Fri Feb 7 08:11:21 2020 -0500 Merge pull request NOAA-EMC#18 from lgannoaa/exception_handling Exception handling commit 4bd0e20 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Thu Feb 6 11:55:31 2020 -0500 Update README.md commit d9ea1ac Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Feb 6 16:03:11 2020 +0000 Issue #3 - reduce hashes down to minimum 8 characters commit bdbecaa Author: Lin.Gan <lin.gan@noaa.gov> Date: Wed Jan 29 15:15:52 2020 +0000 Display exception handling message for individual package with location of the log file commit b64fd5f Merge: cf00863 3ed9267 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Jan 28 15:24:37 2020 +0000 Merge branch 'develop' into feature/manage_externals commit cf00863 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Jan 28 15:23:14 2020 +0000 Issue #3 - remove copy of manage_externals under util and add README.md file commit c12e879 Author: Lin.Gan <lin.gan@noaa.gov> Date: Mon Jan 27 19:38:19 2020 +0000 Implement exception handling in build_all script commit bfc7bb0 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Mon Jan 27 19:06:17 2020 +0000 Issue #3 - initial add of manage_externals and needed Externals.cfg. Also added .gitignore file and removed scripts/files associated with no-longer-used prod_util and grid_util builds. commit 4d5713d Author: Lin.Gan <lin.gan@noaa.gov> Date: Fri Jan 24 15:51:28 2020 +0000 Testing github commit commit 786806f Author: Mallory Row <mallory.row@noaa.gov> Date: Fri Jan 24 15:04:16 2020 +0000 Missed file format updates in a few places in config.metp commit d0a3b53 Author: Lin.Gan <lin.gan@noaa.gov> Date: Fri Jan 24 14:30:29 2020 +0000 init commit for exception handling branch commit c11dfef Author: Mallory Row <mallory.row@noaa.gov> Date: Fri Jan 24 14:07:29 2020 +0000 Update EMC_verif-global tag to verif_global_v1.4.1 commit 0ea809c Author: Mallory Row <mallory.row@noaa.gov> Date: Thu Jan 23 13:29:56 2020 +0000 Update file format variable in config.metp of online archive files commit c0d7179 Author: Mallory Row <mallory.row@noaa.gov> Date: Tue Jan 21 16:37:16 2020 +0000 Add updated env machine files for gfsmetp commit 82e6907 Author: Mallory Row <mallory.row@noaa.gov> Date: Tue Jan 21 16:29:23 2020 +0000 Update config.resources for gfsmetp commit 72e8adf Author: Mallory Row <mallory.row@noaa.gov> Date: Tue Jan 21 16:19:31 2020 +0000 Update EMC_verif-global tag checkout to 1.4.0 commit 6872f79 Author: Mallory Row <mallory.row@noaa.gov> Date: Tue Jan 21 16:14:25 2020 +0000 Add rocoto METplus job script commit 9c94156 Author: Mallory Row <mallory.row@noaa.gov> Date: Tue Jan 21 16:09:13 2020 +0000 Changes to setup_workflow.py for gfsmetp metatask commit 3ed9267 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Jan 14 19:32:36 2020 +0000 Issue #10 - mid-year update to bufr station list (develop) commit 1915aa9 Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Jan 10 18:36:32 2020 +0000 Issue #8 - pulled in config.metp and modifications to two setup scripts commit 67dae40 Merge: f78eb1b 091f4ba Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Jan 8 20:15:45 2020 +0000 Merge branch 'develop' into feature/remove_theia commit f78eb1b Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Jan 8 20:13:08 2020 +0000 Issue #4 - removed references to Theia and Theia scripts commit 091f4ba Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Jan 8 19:37:45 2020 +0000 Issue #7 - missed update to gdas transfer file from GFSv15.2.5 updates commit 3fd4bcf Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Dec 17 19:12:28 2019 +0000 GitHub Issue #2 - GFSv15.2.6 obsproc version update, earc bug fix, and tracker path update commit 5307952 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Wed Dec 11 20:47:44 2019 +0000 HOTFIX - VLab Issue #72346 - fix to rocoto_viewer on Hera
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Adjust efcs walltime and eupd thread value on Orion
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Feature/gefs wave statgem
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